RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1868
(108 letters)
>1ktb_A Alpha-N-acetylgalactosaminidase; glycoprotein, (beta/alpha)8
barrel, hydrolase; HET: NAG; 1.90A {Gallus gallus} SCOP:
b.71.1.1 c.1.8.1 PDB: 1ktc_A* 3h55_A* 3h54_A* 3h53_A*
3igu_A*
Length = 405
Score = 123 bits (310), Expect = 2e-35
Identities = 55/91 (60%), Positives = 67/91 (73%)
Query: 18 LDNGVALTPPMGWLAWERFRCNTDCKNDPENCISERLFRTMADLVVSEGYAAVGYEYINI 77
L+NG+A TPPMGWLAWERFRCN +C+ DP CISE LF MAD + +G+ +GY+YINI
Sbjct: 1 LENGLARTPPMGWLAWERFRCNVNCREDPRQCISEMLFMEMADRIAEDGWRELGYKYINI 60
Query: 78 DDCWLDKTRSFNGRLQADAKRFPRGIADLSN 108
DDCW K R GRL D +RFPRGI L++
Sbjct: 61 DDCWAAKQRDAEGRLVPDPERFPRGIKALAD 91
>3hg3_A Alpha-galactosidase A; glycoprotein, carbohydrate-binding protein,
glycosidase, Lys enzyme, (beta/alpha)8 barrel, disease
mutation; HET: NAG BMA MAN GLA GLC 2PE; 1.90A {Homo
sapiens} PDB: 3tv8_A* 3lx9_A* 3lxa_A* 3lxb_A* 3lxc_A*
3s5z_A* 1r47_A* 1r46_A* 3gxn_A* 3gxt_A* 3hg2_A* 3hg4_A*
3hg5_A* 3gxp_A* 3s5y_A*
Length = 404
Score = 121 bits (305), Expect = 1e-34
Identities = 56/91 (61%), Positives = 69/91 (75%)
Query: 18 LDNGVALTPPMGWLAWERFRCNTDCKNDPENCISERLFRTMADLVVSEGYAAVGYEYINI 77
LDNG+A TP MGWL WERF CN DC+ +P++CISE+LF MA+L+VSEG+ GYEY+ I
Sbjct: 1 LDNGLARTPTMGWLHWERFMCNLDCQEEPDSCISEKLFMEMAELMVSEGWKDAGYEYLCI 60
Query: 78 DDCWLDKTRSFNGRLQADAKRFPRGIADLSN 108
DDCW+ R GRLQAD +RFP GI L+N
Sbjct: 61 DDCWMAPQRDSEGRLQADPQRFPHGIRQLAN 91
>3a21_A Putative secreted alpha-galactosidase; beta-alpha-barrel, greek KEY
motif, beta-jellyroll, beta-TRE hydrolase; HET: GOL 1PG
EPE; 1.51A {Streptomyces avermitilis} PDB: 3a22_A*
3a23_A*
Length = 614
Score = 120 bits (301), Expect = 2e-33
Identities = 25/92 (27%), Positives = 37/92 (40%), Gaps = 10/92 (10%)
Query: 17 ALDNGVALTPPMGWLAWERFRCNTDCKNDPENCISERLFRTMADLVVSEGYAAVGYEYIN 76
+ PMGW +W F I + + D V+ G A GY YIN
Sbjct: 3 TTRQITVPSAPMGWASWNSFAAK----------IDYSVIKKQVDAFVAAGLPAAGYTYIN 52
Query: 77 IDDCWLDKTRSFNGRLQADAKRFPRGIADLSN 108
ID+ W TR G + D +P G++ ++
Sbjct: 53 IDEGWWQGTRDSAGNITVDTAEWPGGMSAITA 84
>3lrk_A Alpha-galactosidase 1; tetramer, GH27, glycoprotein, glycosida
hydrolase; HET: NAG BTB; 1.95A {Saccharomyces
cerevisiae} PDB: 3lrl_A* 3lrm_A*
Length = 479
Score = 106 bits (266), Expect = 9e-29
Identities = 35/108 (32%), Positives = 52/108 (48%), Gaps = 11/108 (10%)
Query: 1 MWLAGLLVASLVAVSKALDNGVALTPPMGWLAWERFRCNTDCKNDPENCISERLFRTMAD 60
+L + V NG+ LTP MGW W F C+ +SE+L AD
Sbjct: 5 YFLTACISLKGVFGVSPSYNGLGLTPQMGWDNWNTFACD----------VSEQLLLDTAD 54
Query: 61 LVVSEGYAAVGYEYINIDDCWLDKTRSFNGRLQADAKRFPRGIADLSN 108
+ G +GY+YI +DDCW R +G L AD ++FP G+ +++
Sbjct: 55 RISDLGLKDMGYKYIILDDCWSSG-RDSDGFLVADEQKFPNGMGHVAD 101
>1szn_A Alpha-galactosidase; (beta/alpha)8 barrel,TWO domains,
glycoprotein, hydrolase; HET: NAG BMA MAN; 1.54A
{Hypocrea jecorina} SCOP: b.71.1.1 c.1.8.1 PDB: 1t0o_A*
Length = 417
Score = 103 bits (257), Expect = 1e-27
Identities = 32/92 (34%), Positives = 44/92 (47%), Gaps = 10/92 (10%)
Query: 17 ALDNGVALTPPMGWLAWERFRCNTDCKNDPENCISERLFRTMADLVVSEGYAAVGYEYIN 76
D P +GW +W + C+ I E F + A+L+VS G GY Y+N
Sbjct: 3 MPDGVTGKVPSLGWNSWNAYHCD----------IDESKFLSAAELIVSSGLLDAGYNYVN 52
Query: 77 IDDCWLDKTRSFNGRLQADAKRFPRGIADLSN 108
IDDCW K +G + +A RFP GI L+
Sbjct: 53 IDDCWSMKDGRVDGHIAPNATRFPDGIDGLAK 84
>3a5v_A Alpha-galactosidase; beta/alpha barrel, N-glycosylation, hydrolase;
HET: MAN NAG BMA 1PG; 2.00A {Umbelopsis vinacea}
Length = 397
Score = 102 bits (255), Expect = 2e-27
Identities = 34/90 (37%), Positives = 47/90 (52%), Gaps = 10/90 (11%)
Query: 19 DNGVALTPPMGWLAWERFRCNTDCKNDPENCISERLFRTMADLVVSEGYAAVGYEYINID 78
+NG+A+TP MGW W ++ CN + E+L A + S G +GY Y+ ID
Sbjct: 2 NNGLAITPQMGWNTWNKYGCN----------VDEQLILDAAKAIASSGLKDLGYNYVIID 51
Query: 79 DCWLDKTRSFNGRLQADAKRFPRGIADLSN 108
DCW R + L AD +FPRGI L +
Sbjct: 52 DCWQKNERESSKTLLADPTKFPRGIKPLVD 81
>1uas_A Alpha-galactosidase; TIM-barrel, beta-alpha-barrel, greek KEY
motif, hydrolase; HET: GLA; 1.50A {Oryza sativa} SCOP:
b.71.1.1 c.1.8.1
Length = 362
Score = 101 bits (251), Expect = 4e-27
Identities = 34/91 (37%), Positives = 51/91 (56%), Gaps = 10/91 (10%)
Query: 18 LDNGVALTPPMGWLAWERFRCNTDCKNDPENCISERLFRTMADLVVSEGYAAVGYEYINI 77
+NG+ TP MGW +W F C I+E++ R AD +V+ G A +GY+Y+NI
Sbjct: 1 FENGLGRTPQMGWNSWNHFYCG----------INEQIIRETADALVNTGLAKLGYQYVNI 50
Query: 78 DDCWLDKTRSFNGRLQADAKRFPRGIADLSN 108
DDCW + +R G + + FP GI L++
Sbjct: 51 DDCWAEYSRDSQGNFVPNRQTFPSGIKALAD 81
>3cc1_A BH1870 protein, putative alpha-N-acetylgalactosaminidase;
structural genomic center for structural genomics, JCSG;
HET: MSE PGE PG4 P33; 2.00A {Bacillus halodurans c-125}
Length = 433
Score = 92.6 bits (229), Expect = 9e-24
Identities = 24/97 (24%), Positives = 39/97 (40%), Gaps = 24/97 (24%)
Query: 17 ALDNGVALTPPMGWLAWERFRCNTDCKNDPENCISERLFRTMADLVVSEGYAAVGYEYIN 76
++ ALTPPMGW +W+ + + ++E A+ + + G+EYI
Sbjct: 3 EVNRLSALTPPMGWNSWDCYGAS----------VTEEEVLGNAEYMAN-HLKKYGWEYIV 51
Query: 77 IDDCWLDKTRS-------------FNGRLQADAKRFP 100
+D W + T + GRL RFP
Sbjct: 52 VDIQWYEPTANSSAYNPFAPLCMDEYGRLLPATNRFP 88
>2xn2_A Alpha-galactosidase; hydrolase, glycosidase; HET: SME GLA IMD;
1.58A {Lactobacillus acidophilus ncfm} PDB: 2xn1_A*
2xn0_A*
Length = 732
Score = 48.5 bits (115), Expect = 5e-08
Identities = 17/87 (19%), Positives = 29/87 (33%), Gaps = 18/87 (20%)
Query: 25 TPPMGWLAWERFRCNTDCKNDPENCISERLFRTMADLVVSEGYAAVGYEYINIDDCWLDK 84
P+ WE + +E +T+ D +G E +DD W
Sbjct: 332 IRPVLVNNWEATYFD----------FNEDKLKTIVD-----KAKKLGLEMFVLDDGWFGH 376
Query: 85 TRSFNGRL---QADAKRFPRGIADLSN 108
N L + K+FP G+ ++
Sbjct: 377 RDDDNSSLGDWKVYKKKFPNGLGHFAD 403
>3mi6_A Alpha-galactosidase; NESG, structural genomics, PSI-2, protein
structure initiati northeast structural genomics
consortium, hydrolase; 2.70A {Lactobacillus brevis}
Length = 745
Score = 43.5 bits (102), Expect = 3e-06
Identities = 17/87 (19%), Positives = 26/87 (29%), Gaps = 18/87 (20%)
Query: 25 TPPMGWLAWERFRCNTDCKNDPENCISERLFRTMADLVVSEGYAAVGYEYINIDDCWLDK 84
P+ WE + +E T+ + +G E +DD W
Sbjct: 329 ERPVLINNWEATYFD----------FNEAKLMTIVNQA-----KRLGIEMFVLDDGWFGH 373
Query: 85 TRSFN---GRLQADAKRFPRGIADLSN 108
G D ++FP GI S
Sbjct: 374 RDDDTTSLGDWFVDQRKFPDGIEHFSQ 400
>2yfo_A Alpha-galactosidase-sucrose kinase agask; hydrolase; HET: GLA GAL;
1.35A {Ruminococcus gnavus E1} PDB: 2yfn_A*
Length = 720
Score = 37.7 bits (87), Expect = 3e-04
Identities = 15/87 (17%), Positives = 29/87 (33%), Gaps = 18/87 (20%)
Query: 25 TPPMGWLAWERFRCNTDCKNDPENCISERLFRTMADLVVSEGYAAVGYEYINIDDCWLDK 84
P+ +WE + + +A A++G + + +DD W K
Sbjct: 328 QRPVLINSWEAAYFD----------FTGDTIVDLAKEA-----ASLGIDMVVMDDGWFGK 372
Query: 85 TRSFNGRL---QADAKRFPRGIADLSN 108
N L Q + + +A+L
Sbjct: 373 RNDDNSSLGDWQVNETKLGGSLAELIT 399
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 33.9 bits (77), Expect = 0.006
Identities = 20/116 (17%), Positives = 39/116 (33%), Gaps = 29/116 (25%)
Query: 4 AGLLVASLVAVSKA----LDNGV-ALTPPMGWLAWERFRCNTDCKNDPENCISERLFRTM 58
GL+ A +A + + + A+T L + RC + P + + +
Sbjct: 275 QGLVTAVAIAETDSWESFFVSVRKAIT----VLFFIGVRCY---EAYPNTSLPPSI---L 324
Query: 59 ADLV-VSEGYA----AVGYEYINIDDCWLDKT-RSFNGRLQADAKRFPRGIADLSN 108
D + +EG ++ N+ + N L A + I+ L N
Sbjct: 325 EDSLENNEGVPSPMLSI----SNLTQEQVQDYVNKTNSHLPAGKQVE---IS-LVN 372
>1zy9_A Alpha-galactosidase; TM1192, struc genomics, joint center for
structural genomics, JCSG, prote structure initiative,
PSI, hydrolase; 2.34A {Thermotoga maritima} SCOP:
b.30.5.11 c.1.8.13
Length = 564
Score = 33.1 bits (75), Expect = 0.011
Identities = 12/84 (14%), Positives = 23/84 (27%), Gaps = 20/84 (23%)
Query: 25 TPPMGWLAWERFRCNTDCKNDPENCISERLFRTMADLVVSEGYAAVGYEYINIDDCWLDK 84
P GW +W + + ++ L +E IDD +
Sbjct: 194 HTPTGWCSWYHYFLD----------LTWEETLKNLKLA-----KNFPFEVFQIDDAYE-- 236
Query: 85 TRSFNGRLQADAKRFPRGIADLSN 108
G FP + +++
Sbjct: 237 --KDIGDWLVTRGDFP-SVEEMAK 257
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 26.2 bits (57), Expect = 1.9
Identities = 12/59 (20%), Positives = 22/59 (37%), Gaps = 14/59 (23%)
Query: 34 ERFRCNTDCKNDPENCISERLFRTMADLVVSE-GYAAVGYEYINIDDC--WLDKTRSFN 89
C +CK P + + D+V + G V + + +D W R+F+
Sbjct: 20 IVLTCP-ECKVYPPKIVER---FSEGDVVCALCGL--VLSDKL-VDTRSEW----RTFS 67
>2jpf_A Hypothetical protein; all alpha helical protein, type III secretion
effector protein, structural genomics; NMR {Bordetella
parapertussis}
Length = 127
Score = 25.9 bits (56), Expect = 2.3
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 74 YINIDDCWLDKTRSFNGRLQADAKRFPRGIADL 106
+ N+D WLD R+ + LQ D K + + + DL
Sbjct: 32 HANLDVKWLDGLRAGSMALQGDVKVWMQNLEDL 64
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 26.0 bits (57), Expect = 2.9
Identities = 9/51 (17%), Positives = 18/51 (35%), Gaps = 10/51 (19%)
Query: 30 WLAWERFRCNTDCKNDPENCISERLFRTMADLVVSEGYAAVGYEYINIDDC 80
W ++F D +D + + ++ Y +EYI I +
Sbjct: 584 WAKVQKFYQKNDTLDDLNSVFIS-----QSGYLLQ--Y---KFEYIGIPER 624
>3on4_A Transcriptional regulator, TETR family; structural genomics,
PSI-2, protein structure initiative, MI center for
structural genomics; HET: MSE; 1.85A {Legionella
pneumophila subsp}
Length = 191
Score = 25.0 bits (55), Expect = 5.2
Identities = 7/24 (29%), Positives = 12/24 (50%)
Query: 52 ERLFRTMADLVVSEGYAAVGYEYI 75
ER+ L+ +GY A ++ I
Sbjct: 13 ERILAVAEALIQKDGYNAFSFKDI 36
>3hww_A 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene- carboxylate
synthase; menaquinone, THDP, Mg, vitamin K2,
carboxylase, magnesium; HET: AKG; 1.95A {Escherichia
coli k-12} PDB: 3flm_A* 3hwx_A* 2jlc_A* 2jla_A*
Length = 556
Score = 25.1 bits (55), Expect = 5.7
Identities = 6/35 (17%), Positives = 11/35 (31%)
Query: 65 EGYAAVGYEYINIDDCWLDKTRSFNGRLQADAKRF 99
Y ++ + LD RL A+ +
Sbjct: 299 ASCEPEEYWIVDDIEGRLDPAHHRGRRLIANIADW 333
>3feo_A MBT domain-containing protein 1; MBTL1, structural genomics,
structural genomics consortium, metal-binding, nucleus,
zinc-finger; 2.50A {Homo sapiens}
Length = 437
Score = 24.6 bits (53), Expect = 8.5
Identities = 9/37 (24%), Positives = 12/37 (32%), Gaps = 4/37 (10%)
Query: 17 ALDNGVALTPPMGWLA----WERFRCNTDCKNDPENC 49
N + LTPP G+ W + T P
Sbjct: 317 CEINMIELTPPRGYTKLPFKWFDYLRETGSIAAPVKL 353
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.322 0.137 0.444
Gapped
Lambda K H
0.267 0.0625 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,763,598
Number of extensions: 92050
Number of successful extensions: 180
Number of sequences better than 10.0: 1
Number of HSP's gapped: 166
Number of HSP's successfully gapped: 28
Length of query: 108
Length of database: 6,701,793
Length adjustment: 72
Effective length of query: 36
Effective length of database: 4,691,481
Effective search space: 168893316
Effective search space used: 168893316
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (23.6 bits)